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mmu_ciMbtd1_1345
Basic information of circular RNA
PanCircBase ID:
mmu_ciMbtd1_1345
mm39_Chr. Position ID:
chr11|93799763|93801108|+
Gene name:
Mbtd1
Transcript:
ENSMUST00000107853.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
1345
Exon/intron sizes in nt:
1345
Flanking exon/introns:
chr11:93799763-93801108
Splice length:
1345
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACGGTACAGAAACCTTCTTATTCTTCCTGTTTCCCATGGCTTTCACGCCCAGTCATCTGACTGAGTCACTGCACTCCACCTCTTCCCATGGGCCCGTGGTTTACAGCCTGTACTGTTAGGAATGTATGAGCCACGAGTGGTATACACTGAAGCATCTTACACAGTGAAAGCATGCTATCCAAGATAAGCTGTAAATAATCTGTATAAATGAATAAGACCTTTTCCCACATAAGTACAATTAAACACCTTGTTCTATGTAGAACTTAACAGCTATTCTCTCTGGTGGTCCTCCCCCCAATTTGTCCTTCATTTCCTATCAAGGCAGAGAATGATTCATTTTGGAGGTCCTTCTGTTTGGTTTTCTTCCCTCAACTTTGCTCTGTACTTTGGATTTTGTTCTTTGTTCTTAGGGTTTTTATTGCTGGGGTGAACCCCAACTTTAAACAGCAGGTTCAGCTTTGTACTTTGAGTACATCCAGTTTGATACCTTAACCAAATATGTTTGATTGACATAACTCACCTTTTTTAAAACATCCATGAAATAAAAAGAAAATCATCCTCTTTTAAATATATATATTAGTGCTGACCAAGTACTGGTGTCTTGACTTACTTAACTCCGTTGTTAACATACCATCTAAAAATTTCTTAAGGCATTATAGTACTGATTTTTGTAATTATCTTTTGTATGATCACAGTTTTTCTCTCTCATTTAATGTACTGTGATCATTACATAGCACTGAAAGAGTTATTTAAATCCCCTAGATGAAGGAAATACATCACTTAGATGTATTTCTATATTTCAGATAGACAGTTCCCAAAGATCCTGAGCAGTGGTCTGTACCCAAATGGATGCAGTTTGTCACACTGAATTTGGCCATGATCATTATGTCACTGACCTTTTGCGTTAGCACTAAAGGTATAAACCTCAGTCACTTGCTCTTTGACCATTCAGTTGACTGCTCTCACCATATCAGTAGCATTGCTTTGCAACTGCATGACTGAATAACCCTGGTTCTGTCTACTCTAAGAAGAAGTTGAATATCCACCACAGCCTGTATTTTAACATTTTATTAAATGGGGTATAATTTTTATTAACATATTAATTCGCATATTGCTGTTTTAGTCTGTGCCAGCTCTACTTCCCATATTAGATAACTACATTGTAGCGGAACTCAGAAAGGAAAAAAAACCTCTAATGTTAAAGTTCCTTGTATGTGTTCTCTGCTTTAATAATTTTCTAAACCCTCAGTATTTAAGCAGAATGAGTAGTATGAAGTCATGTTAGATTTTGGTTGTGAAGGGATGAAGAAGAATCCTATTTACTTAACTTTTCTTGTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTTGTGAAGGGATGAAGAAGA
59.61
CCATGGGAAGAGGTGGAGTG
59.75
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTTGTGAAGGGATGAAGAAGA
59.61
GGAAGAGGTGGAGTGCAGTG
60.32
142
PCR template sequence:
CCCTCAGTATTTAAGCAGAATGAGTAGTATGAAGTCATGTTAGATTTTGGTTGTGAAGGGATGAAGAAGAATCCTATTTACTTAACTTTTCTTGTTTCAGGTAACGGTACAGAAACCTTCTTATTCTTCCTGTTTCCCATGGCTTTCACGCCCAGTCATCTGACTGAGTCACTGCACTCCACCTCTTCCCATGGGCCCGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-200c-3p(1), mmu-miR-101a-3p(1), mmu-miR-217-5p(1), mmu-let-7d-5p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCTTGTTTCAGGTAACGGTACAGA
siRNA sets
TGTACCGTTACCTGAAACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIMBTD1_1345_ORF_1
0.7472
-0.068131185
0.054537664
186
ORF sequence:
ATGTTAGATTTTGGTTGTGAAGGGATGAAGAAGAATCCTATTTACTTAACTTTTCTTGTTTCAGGTAACGGTACAGAAACCTTCTTATTCTTCCTGTTTCCCATGGCTTTCACGCCCAGTCATCTGACTGAGTCACTGCACTCCACCTCTTCCCATGGGCCCGTGGTTTACAGCCTGTACTGTTAG
Peptide sequence:
MLDFGCEGMKKNPIYLTFLVSGNGTETFLFFLFPMAFTPSHLTESLHSTSSHGPVVYSLYC
IRESfinder result
IRESfinder score
0.931565203
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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